ethill/ulana : dev

Bacterial genome assembly and annotation using ONT long read data

Latest release: over 2 years ago - 61 downloads - 1,366 dependencies

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Dependencies

KernSmooth 2.23-20
MASS 7.3-58
Matrix 1.5-1
base 4.2.2
boot 1.3-28
class 7.3-20
cluster 2.1.4
codetools 0.2-18
compiler 4.2.2
datasets 4.2.2
foreign 0.8-82
grDevices 4.2.2
graphics 4.2.2
grid 4.2.2
lattice 0.20-45
methods 4.2.2
mgcv 1.8-41
nlme 3.1-160
nnet 7.3-18
parallel 4.2.2
rpart 4.1.19
spatial 7.3-11
splines 4.2.2
stats4 4.2.2
stats 4.2.2
survival 3.4-0
tcltk 4.2.2
tools 4.2.2
translations 4.2.2
utils 4.2.2

bash 5.0.17
java 17.0.3-internal 0-adhoc..src
python 3.8.10
python 3.8.16
python 3.9.16
python 3.9.7

command-line-arguments (devel)
edirect (devel)
github.com/fatih/color v1.12.0
github.com/gedex/inflector v0.0.0-20170307190818-16278e9db813
github.com/klauspost/cpuid v1.3.1
github.com/mattn/go-colorable v0.1.8
github.com/mattn/go-isatty v0.0.12
github.com/pbnjay/memory v0.0.0-20210728143218-7b4eea64cf58
github.com/rainycape/unidecode v0.0.0-20150907023854-cb7f23ec59be
github.com/surgebase/porter2 v0.0.0-20150829210152-56e4718818e8
golang.org/x/sys v0.0.0-20200223170610-d5e6a3e2c0ae
golang.org/x/text v0.3.7
stdlib 1.17
stdlib 1.18.5

jrt-fs:jrt-fs 17.0.3-internal
minced:minced *

@babel/runtime 7.15.4
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optionator 0.8.3
os-tmpdir 1.0.2
os 0.1.2
p-cancelable 1.1.0
p-limit 2.3.0
p-limit 3.1.0
p-locate 4.1.0
p-map 4.0.0
p-try 2.2.0
package-json 6.5.0
param-case 3.0.4
parse-ms 2.1.0
parse-srcset 1.0.2
parse5 5.1.0
parseurl 1.3.3
pascal-case 3.1.2
path-browserify 1.0.1
path-exists 4.0.0
path-is-absolute 1.0.1
path-key 3.1.1
path-parse 1.0.7
path-to-regexp 0.1.7
path-type 4.0.0
performance-now 2.1.0
picocolors 0.2.1
picocolors 1.0.0
picomatch 2.3.0
pify 3.0.0
pify 4.0.1
pino-std-serializers 3.2.0
pino 6.13.0
pkg-dir 4.2.0
pkginfo 0.4.1
pn 1.1.0
popper.js 1.16.1
postcss-modules-extract-imports 3.0.0
postcss-modules-local-by-default 4.0.0
postcss-modules-scope 3.0.0
postcss-modules-values 4.0.0
postcss-selector-parser 6.0.6
postcss-value-parser 4.1.0
postcss 8.3.9
prelude-ls 1.1.2
prepend-http 2.0.0
prettier-bytes 1.0.4
prettier 2.1.2
pretty-error 3.0.4
pretty-ms 7.0.1
process 0.11.10
promise-inflight 1.0.1
prop-types 15.7.2
proxy-addr 2.0.7
prr 1.0.1
psl 1.8.0
pump 3.0.0
punycode 1.3.2
punycode 1.4.1
punycode 2.1.1
qs 6.5.2
qs 6.7.0
querystring 0.2.0
querystringify 2.2.0
queue-microtask 1.2.3
quick-format-unescaped 4.0.4
randombytes 2.1.0
range-parser 1.2.1
raw-body 2.4.0
raw-loader 4.0.2
rc 1.2.8
react-base16-styling 0.8.0
react-dom 17.0.2
react-highlighter 0.4.3
react-is 16.13.1
react-json-tree 0.15.0
react-lifecycles-compat 3.0.4
react-paginate 6.5.0
react-popper 1.3.11
react-transition-group 2.9.0
react 17.0.2
readable-stream 3.6.0
readdirp 3.6.0
rechoir 0.7.1
regenerator-runtime 0.13.9
regexp.prototype.flags 1.3.1
registry-auth-token 4.2.1
registry-url 5.1.0
relateurl 0.2.7
renderkid 2.0.7
request-promise-core 1.1.4
request-promise-native 1.0.9
request 2.88.0
require-directory 2.1.1
requires-port 1.0.0
resize-observer-polyfill 1.5.1
resolve-cwd 3.0.0
resolve-from 5.0.0
resolve 1.20.0
responselike 1.0.2
restore-cursor 3.1.0
reusify 1.0.4
rimraf 2.4.5
rimraf 3.0.2
run-async 2.4.1
run-parallel 1.2.0
rw 1.3.3
rxjs 6.6.7
safe-buffer 5.1.2
safe-buffer 5.2.1
safer-buffer 2.1.2
sanitize-html 2.3.3
saxes 3.1.11
scheduler 0.20.2
schema-utils 2.7.1
schema-utils 3.1.1
semver 5.7.1
semver 6.3.0
semver 7.3.5
send 0.17.1
serialize-javascript 5.0.1
serialize-javascript 6.0.0
serve-static 1.14.1
setprototypeof 1.1.1
setprototypeof 1.2.0
shallow-clone 3.0.1
shebang-command 2.0.0
shebang-regex 3.0.0
signal-exit 3.0.5
simple-swizzle 0.2.2
slash 3.0.0
sonic-boom 1.4.1
sort-object-keys 1.1.3
sort-package-json 1.44.0
source-list-map 2.0.1
source-map-js 0.6.2
source-map-loader 1.0.2
source-map-support 0.5.20
source-map 0.6.1
source-map 0.7.3
sshpk 1.16.1
ssri 8.0.1
statuses 1.5.0
stealthy-require 1.1.1
steno 0.4.4
string-width 4.2.3
string_decoder 1.3.0
strip-ansi 3.0.1
strip-ansi 6.0.1
strip-final-newline 2.0.0
strip-json-comments 2.0.1
style-loader 2.0.0
supports-color 5.5.0
supports-color 7.2.0
supports-color 8.1.1
svg-url-loader 6.0.0
symbol-tree 3.2.4
tapable 2.2.1
tar 6.1.11
terser-webpack-plugin 4.2.3
terser-webpack-plugin 5.2.4
terser 4.8.0
terser 5.9.0
test-hyphens-underscore 3.0.2
test-hyphens 3.0.2
test_no_hyphens 3.0.2
through 2.3.8
timers-ext 0.1.7
tmp 0.0.33
to-readable-stream 1.0.0
to-regex-range 5.0.1
to-string-loader 1.2.0
toidentifier 1.0.0
topojson-client 3.1.0
tough-cookie 2.4.3
tough-cookie 2.5.0
tough-cookie 3.0.1
tr46 1.0.1
tr46 2.1.0
tryer 1.0.1
tslib 1.13.0
tslib 2.3.1
tsscmp 1.0.6
tunnel-agent 0.6.0
tweetnacl 0.14.5
typanion 3.7.0
type-check 0.3.2
type-fest 0.21.3
type-is 1.6.18
type 1.2.0
type 2.5.0
typed-styles 0.0.7
typescript 4.1.6
typestyle 2.1.0
uglify-js 3.14.2
unique-filename 1.1.1
unique-slug 2.0.2
universalify 2.0.0
unix-crypt-td-js 1.1.4
unpipe 1.0.0
uri-js 4.4.1
url-loader 4.1.1
url-parse-lax 3.0.0
url-parse 1.5.3
url 0.11.0
util-deprecate 1.0.2
utila 0.4.0
utils-merge 1.0.1
uuid 3.4.0
validator 13.6.0
vary 1.1.2
vega-canvas 1.2.6
vega-crossfilter 4.0.5
vega-dataflow 5.7.4
vega-embed 6.19.1
vega-encode 4.8.3
vega-event-selector 2.0.6
vega-event-selector 3.0.0
vega-expression 4.0.1
vega-expression 5.0.0
vega-force 4.0.7
vega-format 1.0.4
vega-functions 5.12.1
vega-geo 4.3.8
vega-hierarchy 4.0.9
vega-interpreter 1.0.4
vega-label 1.1.0
vega-lite 5.1.1
vega-loader 4.4.1
vega-parser 6.1.4
vega-projection 1.4.5
vega-regression 1.0.9
vega-runtime 6.1.3
vega-scale 7.1.1
vega-scenegraph 4.9.4
vega-schema-url-parser 2.2.0
vega-selections 5.3.1
vega-statistics 1.7.10
vega-themes 2.10.0
vega-time 2.0.4
vega-tooltip 0.27.0
vega-transforms 4.9.4
vega-typings 0.22.0
vega-util 1.16.1
vega-util 1.17.0
vega-view-transforms 4.5.8
vega-view 5.10.1
vega-voronoi 4.1.5
vega-wordcloud 4.1.3
vega 5.21.0
verdaccio-audit 10.0.2
verdaccio-htpasswd 10.0.0
verdaccio 5.1.6
verror 1.10.0
vscode-debugprotocol 1.49.0
w3c-hr-time 1.0.2
w3c-xmlserializer 1.1.2
warning 4.0.3
watchpack 2.2.0
webidl-conversions 4.0.2
webidl-conversions 6.1.0
webpack-bundle-analyzer 3.9.0
webpack-cli 4.9.1
webpack-merge 5.8.0
webpack-sources 1.4.3
webpack-sources 3.2.1
webpack 5.59.0
whatwg-encoding 1.0.5
whatwg-fetch 3.6.2
whatwg-mimetype 2.3.0
whatwg-url 7.1.0
whatwg-url 8.7.0
which 2.0.2
wildcard 2.0.0
word-wrap 1.2.3
wordwrap 1.0.0
worker-loader 3.0.8
wrap-ansi 7.0.0
wrappy 1.0.2
ws 6.2.2
ws 7.5.5
xml-name-validator 3.0.0
xmlchars 2.2.0
xtend 4.0.2
xterm-addon-fit 0.4.0
xterm 4.8.1
y-codemirror 2.1.1
y-leveldb 0.1.0
y-protocols 1.0.5
y-websocket 1.3.17
y18n 5.0.8
yallist 4.0.0
yargs-parser 20.2.9
yargs 17.1.1
yarn-deduplicate 2.1.1
yjs 13.5.16
yocto-queue 0.1.0

Babel 2.9.1
Bottleneck 1.3.2
Bottleneck 1.3.5
Cython 0.29.24
Cython 0.29.34
DendroPy 4.5.2
Deprecated 1.2.13
Flask 1.1.2
HeapDict 1.0.1
Jinja2 2.11.3
Keras-Preprocessing 1.1.2
Markdown 3.4.1
MarkupSafe 1.1.1
MarkupSafe 2.1.2
NanoFilt 2.8.0
Pillow 8.4.0
Pillow 9.5.0
PyGObject 3.36.0
PyJWT 2.1.0
PyJWT 2.6.0
PySocks 1.7.1
PyWavelets 1.1.1
PyYAML 6.0
Pygments 2.10.0
QDarkStyle 3.0.2
QtAwesome 1.0.2
QtPy 1.10.0
Rtree 0.9.7
SQLAlchemy 1.4.22
SecretStorage 3.3.1
Send2Trash 1.8.0
Sphinx 4.2.0
TBB 0.2
Unidecode 1.2.0
Werkzeug 2.0.2
Werkzeug 2.2.2
XlsxWriter 3.0.1
absl-py 1.4.0
aiohttp 3.8.3
aiosignal 1.3.1
alabaster 0.7.12
anaconda-client 1.9.0
anaconda-navigator 2.1.1
anaconda-project 0.10.1
anyio 2.2.0
apipkg 1.5
appdirs 1.4.4
argh 0.26.2
argon2-cffi 20.1.0
arrow 0.13.1
asn1crypto 1.4.0
astroid 2.6.6
astropy 4.3.1
astunparse 1.6.3
async-generator 1.10
async-timeout 4.0.2
atomicwrites 1.4.0
attrs 21.2.0
attrs 22.2.0
autopep8 1.5.7
backcall 0.2.0
backports.functools-lru-cache 1.6.4
backports.shutil-get-terminal-size 1.0.0
backports.tempfile 1.0
backports.weakref 1.0.post1
beautifulsoup4 4.10.0
binaryornot 0.4.4
biopython 1.80
bitarray 2.3.0
bkcharts 0.2
black 19.10b0
bleach 4.0.0
blinker 1.5
bokeh 2.4.1
boto 2.49.0
brotlipy 0.7.0
bytecode 0.12.0
cached-property 1.5.2
cachetools 4.2.4
certifi 2019.11.28
certifi 2021.10.8
certifi 2022.12.7
cffi 1.14.6
cffi 1.15.0
cffi 1.15.1
chardet 3.0.4
chardet 4.0.0
charset-normalizer 2.0.4
charset-normalizer 2.1.1
checkm-genome 1.2.2
click 8.0.3
click 8.1.3
cloudpickle 2.0.0
clyent 1.2.2
colorama 0.4.4
conda-build 3.21.5
conda-content-trust 0 unknown
conda-pack 0.6.0
conda-package-handling 1.7.3
conda-repo-cli 1.0.4
conda-token 0.3.0
conda-verify 3.4.2
conda 4.10.3
conda 4.12.0
contextlib2 0.6.0.post1
contourpy 1.0.7
cookiecutter 1.7.2
cryptography 3.4.8
cryptography 39.0.0
cycler 0.10.0
cycler 0.11.0
cytoolz 0.11.0
daal4py 2021.3.0
dask 2021.10.0
dbus-python 1.2.16
debugpy 1.4.1
decorator 5.1.0
defusedxml 0.7.1
diff-match-patch 20200713
distributed 2021.10.0
docutils 0.17.1
edlib 1.3.9
entrypoints 0.3
et-xmlfile 1.1.0
fastcache 1.1.0
filelock 3.3.1
flake8 3.9.2
flask 0.10.1
flatbuffers 2.0
flye 2.9.1
fonttools 4.25.0
fonttools 4.39.3
frozenlist 1.3.3
fsspec 2021.8.1
future 0.18.2
gast 0.4.0
gevent 21.8.0
glob2 0.7
gmpy2 2.0.8
google-auth-oauthlib 0.4.6
google-auth 1.35.0
google-pasta 0.2.0
greenlet 1.1.1
grpcio 1.43.0
h5py 3.3.0
h5py 3.7.0
html5lib 1.1
idna 2.8
idna 3.2
idna 3.4
imagecodecs 2021.8.26
imageio 2.9.0
imagesize 1.2.0
importlib-metadata 4.8.1
importlib-metadata 6.0.0
importlib-resources 5.12.0
inflection 0.5.1
iniconfig 1.1.1
intervaltree 3.1.0
ipykernel 6.4.1
ipython-genutils 0.2.0
ipython 7.29.0
ipywidgets 7.6.5
isort 5.9.3
itsdangerous 2.0.1
jdcal 1.4.1
jedi 0.18.0
jeepney 0.7.1
jinja2-time 0.2.0
joblib 1.1.0
json5 0.9.6
jsonschema 3.2.0
jupyter-client 6.1.12
jupyter-console 6.4.0
jupyter-core 4.8.1
jupyter-server 1.4.1
jupyter 1.0.0
jupyterlab-pygments 0.1.2
jupyterlab-server 2.8.2
jupyterlab-widgets 1.0.0
jupyterlab 3.2.1
keras 2.7.0
keyring 23.1.0
kiwisolver 1.3.1
kiwisolver 1.4.4
lazy-object-proxy 1.6.0
libarchive-c 2.9
llvmlite 0.37.0
lxml 4.6.3
mamba 0.7.6
mappy 2.24
matplotlib-inline 0.1.2
matplotlib 3.4.3
matplotlib 3.7.1
mccabe 0.6.1
medaka 1.7.2
mistune 0.8.4
mkl-fft 1.3.1
mkl-random 1.2.2
mkl-service 2.4.0
mock 4.0.3
more-itertools 8.10.0
mpmath 1.2.1
msgpack 1.0.2
multidict 6.0.4
multipledispatch 0.6.0
munkres 1.1.4
mypy-extensions 0.4.3
mypy 0.931
nanoget 1.18.1
nanomath 1.2.1
navigator-updater 0.2.1
nbclassic 0.2.6
nbclient 0.5.3
nbconvert 6.1.0
nbformat 5.1.3
nest-asyncio 1.5.1
networkx 2.6.3
nltk 3.6.5
nose 1.3.7
notebook 6.4.5
numba 0.54.1
numexpr 2.7.3
numexpr 2.8.4
numpy 1.19.5
numpy 1.20.3
numpy 1.24.2
numpydoc 1.1.0
oauthlib 3.2.2
olefile 0.46
ont-fast5-api 4.1.1
openpyxl 3.0.9
opt-einsum 3.3.0
packaging 21.0
packaging 23.0
packaging 23.1
pandas 1.3.4
pandas 1.5.2
pandocfilters 1.4.3
parasail 1.3.3
parso 0.8.2
partd 1.2.0
path 16.0.0
pathlib2 2.3.6
pathspec 0.7.0
patsy 0.5.2
pep8 1.7.1
pexpect 4.8.0
pickleshare 0.7.5
pip 21.2.4
pip 22.3.1
pip 23.0.1
pkginfo 1.7.1
pluggy 0.13.1
ply 3.11
poyo 0.5.0
progressbar33 2.4
prometheus-client 0.11.0
prompt-toolkit 3.0.20
protobuf 3.19.4
psutil 5.8.0
ptyprocess 0.7.0
py 1.10.0
pyOpenSSL 21.0.0
pyOpenSSL 23.0.0
pyasn1-modules 0.2.8
pyasn1 0.4.8
pycodestyle 2.7.0
pycosat 0.6.3
pycparser 2.20
pycparser 2.21
pycurl 7.44.1
pydata-sphinx-theme 0.9.0
pydocstyle 6.1.1
pyerfa 2.0.0
pyflakes 2.3.1
pylint 2.9.6
pyls-spyder 0.4.0
pyodbc 4.0.0-unsupported
pyparsing 3.0.4
pyparsing 3.0.9
pyrsistent 0.18.0
pysam 0.20.0
pysam 0.21.0
pyspoa 0.0.3
pytest 6.2.4
python-apt 2.0.0 ubuntu0.20.4.8
python-dateutil 2.8.2
python-lsp-black 1.0.0
python-lsp-jsonrpc 1.0.0
python-lsp-server 1.2.4
python-slugify 5.0.2
pytz 2021.3
pytz 2022.7
pyu2f 0.1.5
pyxdg 0.27
pyzmq 22.2.1
qstylizer 0.1.10
qtconsole 5.1.1
regex 2021.8.3
requests-oauthlib 1.3.1
requests-unixsocket 0.2.0
requests 2.22.0
requests 2.26.0
requests 2.28.2
rope 0.19.0
rsa 4.9
ruamel-yaml-conda 0.15.100
scikit-image 0.18.3
scikit-learn-intelex 2021.20210714.170444
scikit-learn 0.24.2
scipy 1.10.1
scipy 1.7.1
scipy 1.9.3
seaborn 0.11.2
setuptools 58.0.4
setuptools 66.0.0
setuptools 66.1.1
simplegeneric 0.8.1
singledispatch 3.7.0
sip 4.19.13
six 1.14.0
six 1.16.0
sniffio 1.2.0
snowballstemmer 2.1.0
sortedcollections 2.1.0
sortedcontainers 2.4.0
soupsieve 2.2.1
sphinxcontrib-applehelp 1.0.2
sphinxcontrib-devhelp 1.0.2
sphinxcontrib-htmlhelp 2.0.0
sphinxcontrib-jsmath 1.0.1
sphinxcontrib-qthelp 1.0.3
sphinxcontrib-serializinghtml 1.1.5
sphinxcontrib-websupport 1.2.4
spyder-kernels 2.1.3
spyder 5.1.5
statsmodels 0.12.2
sympy 1.9
tables 3.6.1
tblib 1.7.0
tensorboard-data-server 0.6.1
tensorboard-plugin-wit 1.8.1
tensorboard 2.6.0
tensorflow-estimator 2.7.0
tensorflow 2.7.1
termcolor 2.2.0
terminado 0.9.4
testpath 0.5.0
text-unidecode 1.3
textdistance 4.2.1
threadpoolctl 2.2.0
three-merge 0.1.1
tifffile 2021.7.2
tinycss 0.4
toml 0.10.2
toolz 0.11.1
tornado 6.1
tqdm 4.62.3
traitlets 5.1.0
typed-ast 1.4.3
typing-extensions 3.10.0.2
typing_extensions 4.4.0
ujson 4.0.2
unicodecsv 0.14.1
urllib3 1.25.8
urllib3 1.26.14
urllib3 1.26.7
watchdog 2.1.3
wcwidth 0.2.5
webencodings 0.5.1
wheel 0.37.0
wheel 0.38.4
whichcraft 0.6.1
widgetsnbextension 3.5.1
wrapt 1.12.1
wrapt 1.14.1
wurlitzer 2.1.1
xlrd 2.0.1
xlwt 1.3.0
xmltodict 0.12.0
yapf 0.31.0
yarl 1.8.2
zict 2.0.0
zipp 3.11.0
zipp 3.15.0
zipp 3.6.0
zope.event 4.5.0
zope.interface 5.4.0

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ethill/ulana : dev

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